UniProt P39023

60S ribosomal protein L3 (P39023)

60S ribosomal protein L3 (UniProt P39023): 56 experimental structures and 1 predicted model on GenesisL1, 2 ligands bound, 138 pockets. Binding sites, druggability and experiment against prediction (TM-score) in GL1X.

UniProt: P39023
Protein: 60S ribosomal protein L3
Experimental structures: 56
Predicted models: 1
Ligands: 2
Pockets: 138 · 44 records with a druggable one

Structures

57 records of P39023 in the MolNFT archive: 56 experimental, 1 predicted.

Entry	Title	Method	Chains	Ligands	Pockets
4UG0	Structure of the human 80S ribosome	electron microscopy	LB	—	—
4V6X	Structure of the human 80S ribosome	electron microscopy	CB	—	—
5LKS	Structure-function insights reveal the human ribosome as a cancer target for antibiotics	electron microscopy	LB	MG	—
6IP8	Cryo-EM structure of the HCV IRES dependently initiated CMV-stalled 80S ribosome (Structure iv)	electron microscopy	1E	—	—
6LQM	Cryo-EM structure of a pre-60S ribosomal subunit - state C	electron microscopy	B	MG	—
6LSS	Cryo-EM structure of a pre-60S ribosomal subunit - state preA	electron microscopy	B	MG	—
6LU8	Cryo-EM structure of a human pre-60S ribosomal subunit - state A	electron microscopy	B	MG	4 (best 0.88)
6OLE	Human ribosome nascent chain complex (CDH1-RNC) stalled by a drug-like molecule with AP and PE tRNAs	electron microscopy	B	MG	—
6OLF	Human ribosome nascent chain complex (CDH1-RNC) stalled by a drug-like molecule with AA and PE tRNAs	electron microscopy	B	MG	2 (best 0.88)
6OLI	Structure of human ribosome nascent chain complex selectively stalled by a drug-like small molecule…	electron microscopy	B	MG	—
6OM7	Human ribosome nascent chain complex (PCSK9-RNC) stalled by a drug-like small molecule with AA and…	electron microscopy	B	—	2 (best 0.89)
6XA1	Structure of a drug-like compound stalled human translation termination complex	electron microscopy	LB	MG	2 (best 0.87)
6Y6X	Tetracenomycin X bound to the human ribosome	electron microscopy	LB	MG	2 (best 0.88)
6Z6L	Cryo-EM structure of human CCDC124 bound to 80S ribosomes	electron microscopy	LB	MG	3 (best 0.89)
6ZMO	SARS-CoV-2 Nsp1 bound to the human LYAR-80S-eEF1a ribosome complex	electron microscopy	LB	MG	3 (best 0.88)
7QVP	Human collided disome (di-ribosome) stalled on XBP1 mRNA	electron microscopy	LB, MB	—	—
7XNX	High resolution cry-EM structure of the human 80S ribosome from SNORD127+/+ Kasumi-1 cells	electron microscopy	LB	MG, K	2 (best 0.88)
7XNY	High resolution cry-EM structure of the human 80S ribosome from SNORD127+/- Kasumi-1 cells	electron microscopy	LB	MG, K	4 (best 0.89)
8A3D	Human mature large subunit of the ribosome with eIF6 and homoharringtonine bound	electron microscopy	E	MG, K	4 (best 0.88)
8FKQ	Human nucleolar pre-60S ribosomal subunit (State A2)	electron microscopy	LN	—	3 (best 0.86)
8FKS	Human nucleolar pre-60S ribosomal subunit (State B2)	electron microscopy	LN	MG	2 (best 0.84)
8FKU	Human nucleolar pre-60S ribosomal subunit (State C2)	electron microscopy	LN	—	4 (best 0.87)
8FKV	Human nucleolar pre-60S ribosomal subunit (State D1)	electron microscopy	LN	MG	2 (best 0.87)
8FKW	Human nucleolar pre-60S ribosomal subunit (State D2)	electron microscopy	LN	—	2 (best 0.89)
8FKX	Human nucleolar pre-60S ribosomal subunit (State E)	electron microscopy	LN	—	4 (best 0.87)
8FKZ	Human nucleolar pre-60S ribosomal subunit (State G)	electron microscopy	LN	—	4 (best 0.89)
8FL0	Human nucleolar pre-60S ribosomal subunit (State H)	electron microscopy	LN	—	4 (best 0.88)
8FL2	Human nuclear pre-60S ribosomal subunit (State I1)	electron microscopy	LN	—	2 (best 0.88)
8FL3	Human nuclear pre-60S ribosomal subunit (State I2)	electron microscopy	LN	—	4 (best 0.90)
8FL4	Human nuclear pre-60S ribosomal subunit (State I3)	electron microscopy	LN	—	2 (best 0.88)
8FL7	Human nuclear pre-60S ribosomal subunit (State J2)	electron microscopy	LN	MG	5 (best 0.89)
8FLB	Human nuclear pre-60S ribosomal subunit (State K2)	electron microscopy	LN	MG	—
8FLD	Human nuclear pre-60S ribosomal subunit (State L1)	electron microscopy	LN	MG	—
8FLE	Human nuclear pre-60S ribosomal subunit (State L2)	electron microscopy	LN	MG	—
8G5Y	mRNA decoding in human is kinetically and structurally distinct from bacteria (IC state)	electron microscopy	LB	K, MG	3 (best 0.87)
8G5Z	mRNA decoding in human is kinetically and structurally distinct from bacteria (GA state)	electron microscopy	LB	MG, K	2 (best 0.88)
8G60	mRNA decoding in human is kinetically and structurally distinct from bacteria (CR state)	electron microscopy	LB	MG	2 (best 0.88)
8G61	mRNA decoding in human is kinetically and structurally distinct from bacteria (AC state)	electron microscopy	LB	MG	2 (best 0.88)
8GLP	mRNA decoding in human is kinetically and structurally distinct from bacteria (Consensus LSU…	electron microscopy	LB	K, MG	1 (best 0.86)
8IE3	human nuclear pre-60S ribosomal particle - State E	electron microscopy	B	—	3 (best 0.89)
8INF	human nuclear pre-60S ribosomal particle - State F'	electron microscopy	B	—	5 (best 0.89)
8IR1	human nuclear pre-60S ribosomal particle - State A	electron microscopy	B	—	5 (best 0.86)
8IR3	human nuclear pre-60S ribosomal particle - State B'	electron microscopy	B	—	3 (best 0.87)
8JDJ	Structure of the Human cytoplasmic Ribosome with human tRNA Asp(Q34) and mRNA(GAU)	electron microscopy	H	MG	3 (best 0.88)
8JDK	Structure of the Human cytoplasmic Ribosome with human tRNA Asp(ManQ34) and mRNA(GAU)	electron microscopy	H	MG	2 (best 0.86)
8K2C	Cryo-EM structure of the human 80S ribosome with Tigecycline	electron microscopy	LB	MG	4 (best 0.88)
8OHD	60S ribosomal subunit bound to the E3-UFM1 complex - state 3 (native)	electron microscopy	LB	MG	5 (best 0.86)
8OJ5	60S ribosomal subunit bound to the E3-UFM1 complex - state 3 (in-vitro reconstitution)	electron microscopy	LB	MG	4 (best 0.88)
8OJ8	60S ribosomal subunit bound to the E3-UFM1 complex - state 1 (native)	electron microscopy	LB	MG	4 (best 0.88)
8QYX	Human 60S ribosomal subunit	electron microscopy	E2	K, MG	2 (best 0.87)
8UKB	In situ HHT and CHX treated human hibernating state without E-tRNA 80S ribosome	electron microscopy	LB	MG	3 (best 0.87)
8XSX	Cryo-EM structure of the human 80S ribosome with Tigecycline, E-tRNA, SERBP1 and eEF2	electron microscopy	LB	MG	3 (best 0.87)
8Y0W	dormant ribosome with eIF5A, eEF2 and SERBP1	electron microscopy	LB	MG	2 (best 0.88)
8YOP	Cryo-EM structure of the human 80S ribosome with 4 um Tigecycline	electron microscopy	LB	MG	2 (best 0.88)
9C3H	Structure of the CNOT3-bound human 80S ribosome with tRNA-ARG in the P-site.	electron microscopy	LB	MG, K	3 (best 0.89)
9G8M	human 80S ribosome bound by a SKI2-exosome complex	electron microscopy	LB	MG	3 (best 0.88)
P39023	AlphaFold monomer V2.0 prediction for 60S ribosomal protein L3 (P39023)	predicted	A	—	6 (best 0.38)

Ligands

MG · Magnesium ion · in 38 records
K · Potassium ion · in 8 records

Experiment against prediction

8A3D chain E against the predicted model P39023: TM-score 1.00, RMSD 0.45 Å
8G5Z chain LB against the predicted model P39023: TM-score 1.00, RMSD 0.47 Å
8G61 chain LB against the predicted model P39023: TM-score 1.00, RMSD 0.50 Å
9C3H chain LB against the predicted model P39023: TM-score 1.00, RMSD 0.50 Å
8G60 chain LB against the predicted model P39023: TM-score 0.99, RMSD 0.53 Å
8GLP chain LB against the predicted model P39023: TM-score 0.99, RMSD 0.55 Å
8OHD chain LB against the predicted model P39023: TM-score 0.99, RMSD 0.56 Å
6XA1 chain LB against the predicted model P39023: TM-score 0.99, RMSD 0.56 Å
8XSX chain LB against the predicted model P39023: TM-score 0.99, RMSD 0.57 Å
8OJ8 chain LB against the predicted model P39023: TM-score 0.99, RMSD 0.59 Å

Elsewhere

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